Arbovirus and malaria infections affect more than half of the world's population causing major financial and physical burden. Current diagnostic tools such as microscopy, molecular and serological techniques are technically demanding, costly, or time consuming. Near-infrared spectroscopy has recently been demonstrated as a potential diagnostic tool for malaria and arbovirus and as a screening tool for disease vectors. However, pathogen specific infrared peaks that allow detection of these infections are yet to be described. In this study, we identified unique NIRS peaks from existing laboratory strains of four major arboviruses including Barmah Forest virus (BFV), Dengue virus (DENV), Ross River virus (RRV), Sindbis virus (SINV) and Plasmodium falciparum. Secondly, to determine the diagnostic ability of these peaks, we developed machine learning algorithms using Artificial Neural network (ANN) to differentiate arboviruses from media in which they are grown. Signature peaks for BFV were identified within the visible region at 410, 430, 562 and 588nm and the NIR region at, 946, 958, 1130, 1154 and 1780 nm. DENV related peaks were seen at 410nm within the visible region and 1130 nm within the NIR region. Signature peaks for RRV were observed within the visible region at 410 and 430 nm and within the NIR region at 1130 and 1780 nm, while SINV had a prominent peak at 410 nm within the visible region. Peaks at 514, 528, 547, 561, 582, and 595nm and peaks at 1388, 1432, 1681, 1700, 1721, 1882, 1905, 2245, 2278, 2300 nm were unique for P. falciparum. NIRS predictive sensitivity defined as the ability to predict an arbovirus as an infection was 90% (n = 20) for BFV, 100% (n =10) for RRV and 97.5% (n= 40) for DENV, while infection specificity defined as the ability to predict media as not-infected was 100% (n= 10). Our findings indicate that spectral signatures obtained by NIRS are potential biomarkers for diagnosis arboviruses and malaria.